Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Compatible with python? #34

Open
SNOL2 opened this issue Apr 22, 2024 · 1 comment
Open

Compatible with python? #34

SNOL2 opened this issue Apr 22, 2024 · 1 comment

Comments

@SNOL2
Copy link

SNOL2 commented Apr 22, 2024

Hi, this is really a practical tool! I was wondering if python users(scanpy users) could benefit from this, particularlly when Seurat can not handle million-scale cells caused by a known issue, i.e., sparse matrices from Matrix package used in Seurat to store counts allow max 2^31-1 non-zero values.
Thanks in advance!

@slowkow
Copy link
Member

slowkow commented Apr 22, 2024

To deal with the issue of large matrices, you might consider selecting a random subset of your cells. Or, consider creating a pseudobulk matrix and working with that instead of the single-cell matrix.

Also, I think porting the code to python would be a valuable contribution to the community.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

2 participants